BLASTP 2.2.18 [Mar-02-2008] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 0001.0094.p (518 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310416|ref|YP_003774508.1| MocR family transcription regul... 979 0.0 gi|300311134|ref|YP_003775226.1| transcription regulator protein... 132 7e-32 gi|300311139|ref|YP_003775231.1| MocR family transcription regul... 127 3e-30 gi|300311074|ref|YP_003775166.1| transcription regulator protein... 124 1e-29 gi|300313928|ref|YP_003778020.1| GntR family transcription regul... 124 2e-29 >gi|300310416|ref|YP_003774508.1| MocR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 516 Score = 979 bits (2532), Expect = 0.0, Method: Compositional matrix adjust. Identities = 486/517 (94%), Positives = 501/517 (96%), Gaps = 7/517 (1%) Query: 1 LSDYLLLRINRTSAKAAPGKGKAAASRESGAAKTTKNVKTGSERMPVNRQIYQLIREAIL 60 LSDYLLLRINR +AKAAPGK KA ++ ESGAAK + R PVNRQIYQLIREAIL Sbjct: 6 LSDYLLLRINRPAAKAAPGKAKAGSAPESGAAKP-------APRTPVNRQIYQLIREAIL 58 Query: 61 AHTLPAGMQLPSSRDLALELGTSRNTVTYAYEQLLAEGYLESRTGAGTFVADTAPDQIPE 120 AHTLPAGMQLPSSRDLALELG+SRNTVTYAYEQLLAEGYLESR GAGTFVADTAPDQIPE Sbjct: 59 AHTLPAGMQLPSSRDLALELGSSRNTVTYAYEQLLAEGYLESRPGAGTFVADTAPDQIPE 118 Query: 121 AVERKEPLTDPSGKSELSARGALLTRQAGVGERQWGAFMPGVPDVTCVPHKIWGRLQNKH 180 AVER EPLTDPSGKSELSARGA+LTRQAGVGERQWGAFMPGVPDVTCVP+KIWGRLQNKH Sbjct: 119 AVERPEPLTDPSGKSELSARGAMLTRQAGVGERQWGAFMPGVPDVTCVPYKIWGRLQNKH 178 Query: 181 WRRSSSDLLTYGPGAGYAGLREQIAEYLRVARSVNCTPSQVLITTGIHQSIDIVVKLLGE 240 WRRS++DLLTYGPGAGYAGLREQIAEYLRVARSVNCTPSQVLITTGIHQS+DIVVKLLGE Sbjct: 179 WRRSNADLLTYGPGAGYAGLREQIAEYLRVARSVNCTPSQVLITTGIHQSLDIVVKLLGE 238 Query: 241 HGDTAWVEDPCYWGTRSVLNSLGIQSVPIAVDQEGMRMRLANLRRPPRFICTTPSHQYPL 300 HGD+AWVEDPCYWGTRSVLNSLGIQSVPIAVDQEGMRMRLANLRRPPRFICTTPSHQYPL Sbjct: 239 HGDSAWVEDPCYWGTRSVLNSLGIQSVPIAVDQEGMRMRLANLRRPPRFICTTPSHQYPL 298 Query: 301 GMVMSLSRRRMLLEYAATHKVWIIEDDYDSEFRYGGRPLASLQGMDTQDRVLYMGTFSKI 360 GMVMSLSRRRMLLEYAATHKVWIIEDDYDSEFRYGGRPLASLQGMDTQDRVLYMGTFSKI Sbjct: 299 GMVMSLSRRRMLLEYAATHKVWIIEDDYDSEFRYGGRPLASLQGMDTQDRVLYMGTFSKI 358 Query: 361 MFPGLRIGFLVVPESLAKAFATGIAELYRNGQVFLQATLADFMAEGHFASHIRKMRVLYA 420 MFPGLRIGFLVVPESLA+AF+TGIAELYRNGQVFLQATLADFMAEGHFASHIRKMRVLYA Sbjct: 359 MFPGLRIGFLVVPESLARAFSTGIAELYRNGQVFLQATLADFMAEGHFASHIRKMRVLYA 418 Query: 421 ERLQLLQQSINRHFGEKMTITGGEAGLHLVLGLPQECDDVLICEEALAAGIVVRPLSRYY 480 ERLQLLQQSINRHFGEKMTITGGEAGLHLVLGLPQECDDVLICE+ALAAGIVVRPLSRYY Sbjct: 419 ERLQLLQQSINRHFGEKMTITGGEAGLHLVLGLPQECDDVLICEQALAAGIVVRPLSRYY 478 Query: 481 MHARGARRGLLLGYASVPNEEIARAFDKLAAVIKPHL 517 MHARGARRGLLLGYASVPN+EIARAFDKLAAVIKPHL Sbjct: 479 MHARGARRGLLLGYASVPNDEIARAFDKLAAVIKPHL 515 >gi|300311134|ref|YP_003775226.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 500 Score = 132 bits (332), Expect = 7e-32, Method: Compositional matrix adjust. Identities = 122/443 (27%), Positives = 205/443 (46%), Gaps = 30/443 (6%) Query: 50 QIYQLIREAILAHTLPAGMQLPSSRDLALELGTSRNTVTYAYEQLLAEGYLESRTGAGTF 109 QI + IR I L +GM++PS R A SR TV AY++L+A+GYLESR G+G + Sbjct: 43 QIVRGIRARIDDKLLRSGMRMPSIRQFADTNQISRFTVVEAYDRLVAQGYLESRRGSGFY 102 Query: 110 VADTAPDQIPEAVERKEPLTDPSGKSELSARGALLTRQAGVGERQWGAFMPGVPDVTCVP 169 V + AP + E T+P ++ + RQ + G +P P Sbjct: 103 VKERAPLGGSYGAAQAELDTEPGRGLDVVWLVRNMFRQMPPAKMPGGGLLP--------P 154 Query: 170 HKIWGRLQNKHWRRSSSD----LLTYGPGAGYAGLREQIAEYLRVAR-SVNCTPSQVLIT 224 + G L R S D LL YG G+ LR+Q+ L++A + P Q+++T Sbjct: 155 DWLDGELIANALRAVSRDNPQLLLGYGTPQGFLPLRQQLQ--LKLAELEIAAAPEQIVLT 212 Query: 225 TGIHQSIDIVVKLLGEHGDTAWVEDPCYWGTRSVLNSLGIQSVPIAVDQEG---MRMR-L 280 TG+ Q +D V + GD +V+DP ++ +LG + V I +G R+R L Sbjct: 213 TGVTQGLDTVARHFLRPGDVIFVDDPAWFLMFGSFAALGAKVVGIPRLGDGPDIARLREL 272 Query: 281 ANLRRPPRFICTTPSHQYPLGMVMSLSRRRMLLEYAATHKVWIIEDDYDSEFRYGG--RP 338 A + +P ++ + H P +S ++ +L A H I+EDD + G +P Sbjct: 273 AAVHKPKLYVINSVLHN-PTSTSLSAAKAFQVLRIAEEHDFVIVEDDIYCDMHPGSAVQP 331 Query: 339 LASLQGMDTQDRVLYMGTFSKIMFPGLRIGFLVVPESLAKAFAT-GIAELYRNGQVFLQA 397 + +D RV+Y+G FSK + LR+G++ LA++ A + G++ + Sbjct: 332 ATRIAALDQLQRVIYLGGFSKTLSANLRVGYIATSAELARSLADRKLLSTLTTGEIG-ER 390 Query: 398 TLADFMAEGHFASHIRKMRVLYAERLQLLQQSINRHFGEKMTITGGEA-GLHLVLGLPQE 456 ++EGH+ H ++R RL + + R E++ + EA + L + Sbjct: 391 VAYKVLSEGHYRKHAERVRA----RLNGARDKVMRQL-ERLGMDVVEAPPCGMFLWVDTG 445 Query: 457 CDDVLICEEALAAGIVVRPLSRY 479 D ++ E A+ G ++ P S + Sbjct: 446 RDTNVMTEAAMQEGFLLAPGSLF 468 >gi|300311139|ref|YP_003775231.1| MocR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 398 Score = 127 bits (318), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 91/363 (25%), Positives = 162/363 (44%), Gaps = 5/363 (1%) Query: 157 AFMPGVPDVTCVPHKIWGRLQNKHWRRSSSDLLTYGPGAGYAGLREQIAEYLRVARSVNC 216 +F G+P P + ++ + L YGP GY LRE IA L Sbjct: 39 SFAGGLPSPLTFPVEHMKTAFDRVLSQQGKMALQYGPTDGYLPLREWIAASLST-NGAQI 97 Query: 217 TPSQVLITTGIHQSIDIVVKLLGEHGDTAWVEDPCYWGTRSVLNSLGIQSVPIAVDQEGM 276 + QVL+ +G Q +D++ K+L + G VE P Y G G + + D+ G+ Sbjct: 98 SAEQVLMVSGSQQGLDLLGKVLIDEGSKVLVETPSYLGALQAFALYGAKFESVPSDEFGL 157 Query: 277 RMR-LANLRRPPRFICTTPSHQYPLGMVMSLSRRRMLLEYAATHKVWIIEDDYDSEFRYG 335 + + + R + + P+ Q P G + RR L+E A + +IEDD Y Sbjct: 158 QPETIEAIAGGARMLYSLPNFQNPTGRTLPTERRFKLVETCARLGLPLIEDDPYGALSYQ 217 Query: 336 GRPLASLQGMDTQDRVLYMGTFSKIMFPGLRIGFLVVPESLAKAFATGIAELYRNGQVFL 395 PL + M+ V+YMG+FSK++ PG+R+G++V P L + Sbjct: 218 NAPLPKMLSMNPSG-VIYMGSFSKVLTPGIRLGYVVAPRPLILKMEQAKQATDLHTAQLT 276 Query: 396 QATLADFMAEGHFASHIRKMRVLYAERLQLLQQSINRHFGEKMTITGGEAGLHLVLGLPQ 455 Q + + + +G H+ +R LY ++ Q + ++ ++F + + E G+ + + LP+ Sbjct: 277 QMVVYEAIKDGFLDQHVPTIRKLYGDQCQAMLDALQQYFPASCSWSKPEGGMFIWVTLPE 336 Query: 456 ECDDVLICEEAL-AAGIVVRPLSRYYMHARGARRGLLLGYASVPNEEIARAFDKLAAVIK 514 D + EA+ + P + +Y + + L L + +VP E+I ++L +I Sbjct: 337 HIDAGALLNEAVEQEKVAFVPGAPFYANV-AQKNTLRLSFVTVPPEQIRAGVERLGKLIA 395 Query: 515 PHL 517 L Sbjct: 396 SKL 398 >gi|300311074|ref|YP_003775166.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 516 Score = 124 bits (312), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 117/452 (25%), Positives = 206/452 (45%), Gaps = 33/452 (7%) Query: 42 SERMPVNRQIYQLIREAILAHTLPAGMQLPSSRDLALELGTSRNTVTYAYEQLLAEGYLE 101 S R P+ R++ + AI A TL AG ++PS RDL + S +T + G+LE Sbjct: 37 SGRQPLYRRLADHYQSAIQAGTLVAGDRMPSVRDLMRQHQVSLSTALQTLRHMEEGGWLE 96 Query: 102 SRTGAGTFVADTAPDQIPEAVERKEPLTDPSGKSELSARGALLTRQAGVGERQWGAFMPG 161 +R +G FV I E K L +G+ G + RQ GA Sbjct: 97 ARPRSGYFVRQPRRSAIRPVQEPKSLLAIDAGQFV----GIHERVSKYIALRQAGAPHID 152 Query: 162 VPDVTCVPHKIWG--RLQNKHWR--RSSSDLLTYG-PGAGYAGLREQIAEYLRVARSVNC 216 + +TC P +++ L+ R R +LLT P G A R+ +A R++N Sbjct: 153 LSGMTCAP-QLYAVETLKQAAMRALRERPELLTSAMPHNGNATFRQAVAR-----RALNA 206 Query: 217 ----TPSQVLITTGIHQSIDIVVKLLGEHGDTAWVEDPCYWGTRSVLNSLGIQSVPI--- 269 +V++T G +++++ ++ + GDT VE P Y+G L +LG++++ I Sbjct: 207 GMRIDTEEVVVTHGCIEALNLAMRAVAGPGDTIAVESPTYFGLLQALENLGMKALEIPTS 266 Query: 270 ---AVDQEGMRMRL---ANLRRPPRFICTTPSHQYPLGMVMSLSRRRMLLEYAATHKVWI 323 + E + + + N++ + P+ Q PLG +M + L+ K+ + Sbjct: 267 PHTGISVEALELAVRTYGNIK----AVVVVPNLQNPLGCIMPEDHKDQLVRLCDQLKLPL 322 Query: 324 IEDDYDSEFRYGGRPLASLQGMDTQDRVLYMGTFSKIMFPGLRIGFLVVPESLAKAFATG 383 IEDD +E G +SL+ D V+Y + +K++ PG+R+G++ + Sbjct: 323 IEDDAYTELADGSVTPSSLKSRDRNGNVIYCASLNKVLAPGMRLGWMNGGRWHERVKMLK 382 Query: 384 IAELYRNGQVFLQATLADFMAEGHFASHIRKMRVLYAERLQLLQQSINRHFGEKMTITGG 443 R + + Q T ADF+A + H+R++R + ++ + + +SI +F E + Sbjct: 383 FTH-TRANEEWTQVTAADFIASPAYDRHLRRLRQMLKQQRERMAESIAAYFPEGTRLNLP 441 Query: 444 EAGLHLVLGLPQECDDVLICEEALAAGIVVRP 475 G+ L + LP + + E ALA G+ V P Sbjct: 442 NGGVGLWVELPVQVCSQQLFERALAEGVGVSP 473 >gi|300313928|ref|YP_003778020.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 472 Score = 124 bits (312), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 106/359 (29%), Positives = 169/359 (47%), Gaps = 23/359 (6%) Query: 64 LPAGMQLPSSRDLALELGTSRNTVTYAYEQLLAEGYLESRTGAGTFVADTAPDQIPEAV- 122 L +G +LPS R A +TV AYEQL+A G L++R GAG FVA A AV Sbjct: 38 LRSGERLPSVRQFAQHHDIGSSTVVEAYEQLVARGMLQARRGAGFFVAARAGQSGQHAVF 97 Query: 123 ERKEPLTDPSG-KSELSARGALLTRQAGVGERQWGAFMPGVPDVTCVPHKIWGRLQNKHW 181 EP+ D + SE+ A + + AG G ++PG + + + + + Sbjct: 98 VPPEPVIDSAWLLSEMFADERVPIK-AGCG------WLPG----KWLNDEGLHQAERRII 146 Query: 182 RRSSSDLLTYGPGAGYAGLREQIAEYLRVARSVNCTPSQVLITTGIHQSIDIVVKLLGEH 241 R + + YG GYA LR+ I ++L S+ QVL T G Q++D+V++ + + Sbjct: 147 RSPGAQQVGYGHPYGYAPLRQLITQFLG-HWSLELGIEQVLTTHGATQALDLVIRTMTQP 205 Query: 242 GDTAWVEDPCYWGTRSV-----LNSLGIQSVPIAVDQEGMRMRLANLRRPPRFICTTPSH 296 GDT ++DP Y ++ LN +G+ P VD + + LA P F TT Sbjct: 206 GDTVLIDDPGYCNLIAMLRLAGLNVIGVPRTPGGVDTDVLET-LARTHHPKMFF-TTSVL 263 Query: 297 QYPLGMVMSLSRRRMLLEYAATHKVWIIEDDYDSEFRYGGRPLASLQGMDTQDRVLYMGT 356 Q P G + + +L+ A H W++EDD E P+ L +D RV+Y+G+ Sbjct: 264 QNPTGTSYTPACAMRVLQAAERHGFWVVEDDIFRELGQATDPM--LAALDGLQRVIYVGS 321 Query: 357 FSKIMFPGLRIGFLVVPESLAKAFATGIAELYRNGQVFLQATLADFMAEGHFASHIRKM 415 +SK + P LR+G++ LA+ L + + + + EGH H++ + Sbjct: 322 YSKTIAPSLRVGYIACQRELARQIVHTKMVLTLTNSEINERLVHNVLTEGHHRRHVQTL 380 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.320 0.136 0.402 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 1,649,472 Number of extensions: 72338 Number of successful extensions: 252 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 230 Number of HSP's successfully gapped: 10 Length of query: 518 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 429 Effective length of database: 1,198,455 Effective search space: 514137195 Effective search space used: 514137195 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 133 (55.8 bits)